R Observatory: Metrics for spread version 2019.8.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2021-04-21. Its history is shown below.

Reason: requires archived package 'fhidata'

Details below reflect version 2019.8.5, its last release before removal.

spread

2019.8.5

Infectious Disease Spread Models

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Richard White1 releasesCRAN page ↗

A stochastic SEIIaR (susceptible, exposed, infectious, infectious asymptomatic, recovered) metapopulation model that including commuting. Each location has a local infection system, while the locations are connected by people who commute each day. The model differentiates between day and night. During the day you can infect/be infected in the location where you work, while during the night you can infect/be infected in the location where you live. It is the same commuters who travel back and forth each day. At the start of a day, all commuters are sent to their work location, where they mix for 12 hours. The commuters are then sent to their respective home locations, where they mix for 12 hours. The model is loosely based upon a published model by Engebretsen (2019) doi:10.1371/journal.pcbi.1006879.

Install

R (source archive)openSUSE (OBS)

url <- "https://cran.r-project.org/src/contrib/Archive/spread/spread_2019.8.5.tar.gz"
pkgFile <- "spread_2019.8.5.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (2019.8.5) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-spread

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

Yes

Tests · ratio 0.05

not tracked

Coverage

100%

Documentation · exports

7

Dependencies · direct

Documentation

READMEYes · 143 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 0%
References docs: 0%

Downloads

spread Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on16 autocran

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (7)

Rcpp RcppProgress data.table fhidata stringr readxl zoo

LinkingTo (2)

Rcpp RcppProgress

Suggests (5)

testthat knitr ggplot2 glue rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Richard White

Author, Maintainer

Authors (3)

Richard White

Author, Maintainer

Solveig Engebretsen

Author

Andreas Nygård Osnes

Author

Package Timeline

1 release. R releases are shown for context.

R
R 4.1.0 released · 2021-05-18
archivedRemoved from CRAN
2021-04-21
requires archived package 'fhidata'
R
R 4.0.0 released · 2020-04-24
2019.8.5
2019-08-20
R
R 3.6.0 released · 2019-04-26

Package metadata

Total releases: 1
License: GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 51 KB / 5 files
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("spread")

Format

Engebretsen, S., Osnes, A. N., & White, R. (n.d.). spread: Infectious Disease Spread Models (Version 2019.8.5) [Computer software]. Retrieved August 13, 2026, from https://CRAN.R-project.org/package=spread

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for spread version 2019.8.5 [Data set]. HJJB, LLC. Data release v2026-08-13. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-13, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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